LOCUS       NM_011672               1996 bp    mRNA    linear   ROD 04-JUN-2024
DEFINITION  Mus musculus ubiquitin recognition factor in ER-associated
            degradation 1 (Ufd1), transcript variant 1, mRNA.
ACCESSION   NM_011672
VERSION     NM_011672.4
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 1996)
  AUTHORS   Devaraju,P., Yu,J., Eddins,D., Mellado-Lagarde,M.M., Earls,L.R.,
            Westmoreland,J.J., Quarato,G., Green,D.R. and Zakharenko,S.S.
  TITLE     Haploinsufficiency of the 22q11.2 microdeletion gene Mrpl40
            disrupts short-term synaptic plasticity and working memory through
            dysregulation of mitochondrial calcium
  JOURNAL   Mol Psychiatry 22 (9), 1313-1326 (2017)
   PUBMED   27184122
REFERENCE   2  (bases 1 to 1996)
  AUTHORS   Paronett,E.M., Meechan,D.W., Karpinski,B.A., LaMantia,A.S. and
            Maynard,T.M.
  TITLE     Ranbp1, Deleted in DiGeorge/22q11.2 Deletion Syndrome, is a
            Microcephaly Gene That Selectively Disrupts Layer 2/3 Cortical
            Projection Neuron Generation
  JOURNAL   Cereb Cortex 25 (10), 3977-3993 (2015)
   PUBMED   25452572
REFERENCE   3  (bases 1 to 1996)
  AUTHORS   Zhang,Z., Wang,Y., Li,C., Shi,Z., Hao,Q., Wang,W., Song,X.,
            Zhao,Y., Jiao,S. and Zhou,Z.
  TITLE     The Transitional Endoplasmic Reticulum ATPase p97 Regulates the
            Alternative Nuclear Factor NF-kappaB Signaling via Partial
            Degradation of the NF-kappaB Subunit p100
  JOURNAL   J Biol Chem 290 (32), 19558-19568 (2015)
   PUBMED   26112410
  REMARK    GeneRIF: The study revealed a regulatory role of the p97-Npl4-Ufd1
            complex in regulating a partial degradation of the NF-kappaB
            subunit p100.
REFERENCE   4  (bases 1 to 1996)
  AUTHORS   Karpinski,B.A., Maynard,T.M., Fralish,M.S., Nuwayhid,S., Zohn,I.E.,
            Moody,S.A. and LaMantia,A.S.
  TITLE     Dysphagia and disrupted cranial nerve development in a mouse model
            of DiGeorge (22q11) deletion syndrome
  JOURNAL   Dis Model Mech 7 (2), 245-257 (2014)
   PUBMED   24357327
REFERENCE   5  (bases 1 to 1996)
  AUTHORS   Maynard,T.M., Gopalakrishna,D., Meechan,D.W., Paronett,E.M.,
            Newbern,J.M. and LaMantia,A.S.
  TITLE     22q11 Gene dosage establishes an adaptive range for sonic hedgehog
            and retinoic acid signaling during early development
  JOURNAL   Hum Mol Genet 22 (2), 300-312 (2013)
   PUBMED   23077214
REFERENCE   6  (bases 1 to 1996)
  AUTHORS   Sutherland,H.F., Kim,U.J. and Scambler,P.J.
  TITLE     Cloning and comparative mapping of the DiGeorge syndrome critical
            region in the mouse
  JOURNAL   Genomics 52 (1), 37-43 (1998)
   PUBMED   9740669
REFERENCE   7  (bases 1 to 1996)
  AUTHORS   Puech,A., Saint-Jore,B., Funke,B., Gilbert,D.J., Sirotkin,H.,
            Copeland,N.G., Jenkins,N.A., Kucherlapati,R., Morrow,B. and
            Skoultchi,A.I.
  TITLE     Comparative mapping of the human 22q11 chromosomal region and the
            orthologous region in mice reveals complex changes in gene
            organization
  JOURNAL   Proc Natl Acad Sci U S A 94 (26), 14608-14613 (1997)
   PUBMED   9405660
REFERENCE   8  (bases 1 to 1996)
  AUTHORS   Botta,A., Lindsay,E.A., Jurecic,V. and Baldini,A.
  TITLE     Comparative mapping of the DiGeorge syndrome region in mouse shows
            inconsistent gene order and differential degree of gene
            conservation
  JOURNAL   Mamm Genome 8 (12), 890-895 (1997)
   PUBMED   9383280
  REMARK    Erratum:[Mamm Genome 1998 Apr;9(4):344]
REFERENCE   9  (bases 1 to 1996)
  AUTHORS   Pizzuti,A., Novelli,G., Ratti,A., Amati,F., Mari,A., Calabrese,G.,
            Nicolis,S., Silani,V., Marino,B., Scarlato,G., Ottolenghi,S. and
            Dallapiccola,B.
  TITLE     UFD1L, a developmentally expressed ubiquitination gene, is deleted
            in CATCH 22 syndrome
  JOURNAL   Hum Mol Genet 6 (2), 259-265 (1997)
   PUBMED   9063746
REFERENCE   10 (bases 1 to 1996)
  AUTHORS   Botta,A., Jurecic,V., Pizzuti,A., Novelli,G., Dallapiccola,B. and
            Baldini,A.
  TITLE     Assignment of the gene for a ubiquitin fusion degradation protein
            (Ufd1l) to mouse chromosome 16B1-B4, syntenic with the Tuple1 gene
  JOURNAL   Cytogenet Cell Genet 77 (3-4), 264-265 (1997)
   PUBMED   9284932
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            CJ085208.1, AK147138.1 and AW544149.1.
            
            On Sep 3, 2009 this sequence version replaced NM_011672.3.
            
            Transcript Variant: This variant (1) represents the longer
            transcript and is the protein-coding transcript.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: AK147138.1, AK010461.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849375, SAMN00849379
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-20                CJ085208.1         1-20
            21-1991             AK147138.1         4-1974
            1992-1996           AW544149.1         1-5                 c
FEATURES             Location/Qualifiers
     source          1..1996
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="16"
                     /map="16 11.65 cM"
     gene            1..1996
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /note="ubiquitin recognition factor in ER-associated
                     degradation 1"
                     /db_xref="GeneID:22230"
                     /db_xref="MGI:MGI:109353"
     exon            1..124
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /inference="alignment:Splign:2.1.0"
     CDS             122..1045
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /note="ubiquitin fusion degradation protein 1 homolog; UB
                     fusion protein 1; ubiquitin fusion degradation 1 like"
                     /codon_start=1
                     /product="ubiquitin recognition factor in ER-associated
                     degradation protein 1"
                     /protein_id="NP_035802.3"
                     /db_xref="CCDS:CCDS28028.1"
                     /db_xref="GeneID:22230"
                     /db_xref="MGI:MGI:109353"
                     /translation="MFSFNMFDHPIPRVFQNRFSTQYRCFSVSMLAGPNDRSDVEKGG
                     KIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMTHCGVLEFVADEGICYLPHWMMQNL
                     LLEEGGLVQVESVNLQVATYSKFQPQSPDFLDITNPKAVLENALRNFACLTTGDVIAI
                     NYNEKIYELRVMETKPDKAVSIIECDMNVDFDAPLGYKEPERPVQHEESIEGEADHSG
                     YAGEVGFRAFSGSGNRLDGKKKGVEPSPSPIKPGDIKRGIPNYEFKLGKITFIRNSRP
                     LVKKVEEDEAGGRFIAFSGEGQSLRKKGRKP"
     exon            125..257
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /inference="alignment:Splign:2.1.0"
     exon            258..290
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /inference="alignment:Splign:2.1.0"
     exon            291..412
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /inference="alignment:Splign:2.1.0"
     exon            413..543
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /inference="alignment:Splign:2.1.0"
     exon            544..616
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /inference="alignment:Splign:2.1.0"
     exon            617..685
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /inference="alignment:Splign:2.1.0"
     exon            686..751
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /inference="alignment:Splign:2.1.0"
     exon            752..799
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /inference="alignment:Splign:2.1.0"
     exon            800..888
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /inference="alignment:Splign:2.1.0"
     exon            889..970
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /inference="alignment:Splign:2.1.0"
     exon            971..1996
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1071..1076
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /note="hexamer: AATAAA"
     polyA_site      1089
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /note="major polyA site"
     regulatory      1972..1977
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /note="hexamer: AATAAA"
     polyA_site      1990
                     /gene="Ufd1"
                     /gene_synonym="Ufd1l"
                     /note="major polyA site"
ORIGIN      
        1 ttccggcgag cctctcgcgg tttctgggtt tcagagcagt ggcctggact gcaaagaggg
       61 agctgtgggt ttttattgta aggttcagga aaagaagcgg catcaccaaa cgctgtcagt
      121 catgttttct ttcaacatgt ttgaccaccc gattccccgg gtcttccaga accgcttctc
      181 cacgcagtac cgctgcttct ccgtgtccat gctagcaggg cctaatgaca ggtcagatgt
      241 ggagaaagga gggaagataa ttatgccacc ctcagccctc gatcaactca gccggctcaa
      301 cattacctat cctatgctgt ttaaattgac caataagaat tcagatcgga tgacacactg
      361 cggtgtactg gagtttgttg ctgatgaagg catctgttac ctcccccact ggatgatgca
      421 gaatttgctg ttggaggaag ggggcctggt tcaggtggaa agtgtcaacc tccaagtggc
      481 gacctactct aagttccagc ctcagagccc agacttcctg gatattacca accctaaagc
      541 ggtattagaa aatgcattga gaaacttcgc ctgtctgacg actggagatg tgattgctat
      601 caactacaat gagaagatct atgagctgcg ggtgatggag accaaacctg acaaggctgt
      661 atccattatt gaatgtgaca tgaatgtgga ttttgatgct cccttgggat acaaagaacc
      721 agaaagacca gtgcagcatg aggagtcaat agagggagaa gctgaccaca gtggctatgc
      781 cggagaggtg ggcttccgtg ccttctctgg ttctgggaat agactggatg ggaagaaaaa
      841 aggggttgag cccagtccct ccccaatcaa gcctggagac atcaaaagag gaattcctaa
      901 ttacgaattt aagcttggta agatcacttt catcagaaat tcacgtccat tggtcaaaaa
      961 ggttgaagag gatgaagctg gaggcagatt cattgctttc tctggagaag gacagtcact
     1021 gcgtaagaag ggaagaaagc cctaagtcta aaactgttgg ctgactggaa aataaaagat
     1081 ccgattgcac ctggcttaca gttactggct ctgacaagtt cagagatact ctgttattta
     1141 tggtttgttt aaagttacct gagaactatc aagcttgtcc tggatacaaa gcagcagaac
     1201 ttggaggttg tgtgcttgat ctgggggaga gagcgctggg gtcctctagg tggtggcctc
     1261 ctccactccc taactccagc ttcagggccc tcacagcctc agcagagcag ctcccgattc
     1321 ctgactcact cttcttcccc atgtctgttc atggtgcagt gtctttagcc catcatggct
     1381 actcaggcca gcacttgagt accagacaaa gatggcctct gtttttattt acagtgactc
     1441 agaagggatc tcatccagat gaaagcgctc tcattttaat ctgctcgctc tcagtgaatt
     1501 ccatgatgaa gccagatatg aaaggcagaa tgaatacatg cttgagtaac gtgcccccgt
     1561 tacatttatt ttttattatt atttttattt atttttgtgg cttttcaaga cagagttccc
     1621 tggctgtcct ggaactcact ttgtagacta ggctggcctt gaactcaaaa atccacctgc
     1681 ctctgcctcc caagtgctgg gattaaaggt gtgcgccacc actgcccgcc ctccgctaca
     1741 tttattaccc aaggttctga tggtttgtct gtttttcaag tgctaggatt gaaccagaac
     1801 ctcgtgaata ttaagcatgc cacacactct gccactgagg ctcccccata ccccattttc
     1861 ttactgtttt attgtcttca gatctgcact ttgtatgatg taaggtcttt tgacatgctg
     1921 atccagctat ttaaaatttg ttccctgaga ataattctta ttgaagaatt aaataaactg
     1981 attaaaactc gcctct
//
